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See below the latest publications and resources from LUMICKS and our instrument users
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Latest peer-reviewed papers from C-Trap users
- DNA-binding proteins
- Protein folding
- Cytoskeleton structure and transport
- Protein droplets and phase separation
- Other applications
- Anand, R. et al. HELQ is a dual-function DSB repair enzyme modulated by RPA and RAD51. Nature 2021
- Paul, B. et al. Mechanics of CRISPR-Cas12a and engineered variants on λ-DNA. Nucleic Acids Research 2021
- Hill, C. H. et al. Structural and molecular basis for Cardiovirus 2A protein as a viral gene expression switch. Nature Communications 2021
- Zhang, Q. et al. Efficient DNA interrogation of SpCas9 governed by its electrostatic interaction with DNA beyond the PAM and protospacer. Nucleic Acids Research 2021
- Buzón, P. et al. Virus self-assembly proceeds through contact-rich energy minima. Science Advances 2021
- Davis, R. B. et al. FUS Oncofusion Protein Condensates Recruit mSWI/SNF Chromatin Remodeler via Heterotypic Interactions Between Prion-like Domains. Protein Science 2021
- Lin, SN. et al. Direct visualization of the effect of DNA structure and ionic conditions on HU–DNA interactions. Scientific Reports 2021,
- Losito, M. et al. Cas12a Target Search and Cleavage on Force-Stretched DNA. PCCP 2021
- Newton, M. D. et al. A Minimal Load-and-Lock RuII Luminescent DNA Probe. Angew. Chem. Int. Ed 2021
- Backer, A. S. et al. Elucidating the Role of Topological Constraint on the Structure of Overstretched DNA Using Fluorescence Polarization Microscopy. J. Phys. Chem. B 2021
- de Asis Balaguer, F. et al. CTP promotes efficient ParB-dependent DNA condensation by facilitating one-dimensional diffusion from parS. eLife 2021
- Quail, T. et al. Force generation by protein–DNA co-condensation. Nature Physics 2021
- Belan, O. et al. Generation of versatile ss-dsDNA hybrid substrates for single-molecule analysis. STAR Protocols 2021
- Lin, X. et al. Cooperative DNA looping by PRC2 complexes. Nucleic Acids Research 2021
- Ye, S. et al. Proximal Single-Stranded RNA Destabilizes Human Telomerase RNA G-Quadruplex and Induces Its Distinct Conformers. J. Phys. Chem. Lett. 2021
- Sánchez, H. et al. DNA replication origins retain mobile licensing proteins. Nature Communications 2021
- Keenen, M. M. et al. HP1 proteins compact DNA into mechanically and positionally stable phase separated domains. eLife 2021
- Belan, O. et al. Single-molecule analysis reveals cooperative stimulation of Rad51 filament nucleation and growth by mediator proteins. Molecular Cell 2021
- Leicher, R. et al. Single-molecule and in silico dissection of the interaction between Polycomb repressive complex 2 and chromatin. PNAS 2020
- Zhang, S. et al. Dynamics of Staphylococcus aureus Cas9 in DNA target Association and Dissociation. EMBO Rep 2020
- Spakman, D. et al. Constructing arrays of nucleosome positioning sequences using Gibson Assembly for single-molecule studies. Scientific Reports 2020
- Khawaja, A. et al. Distinct pre-initiation steps in human mitochondrial translation. Nature Communications 2020
- Rill, N. et al. Alkyltransferase-like protein clusters scan DNA rapidly over long distances and recruit NER to alkyl-DNA lesions. PNAS 2020
- Qin, Z. et al. Human RPA activates BLM’s bidirectional DNA unwinding from a nick. eLife 2020
- Kretzer, B. et al. Single-Molecule Mechanics in Ligand Concentration Gradient. Micromachines 2020
- Zhang, Q. et al. The post-PAM interaction of RNA-guided spCas9 with DNA dictates its target binding and dissociation. Science Advances 2019
- Gutierrez-Escribano, P. et al. A conserved ATP- and Scc2/4-dependent activity for cohesin in tethering DNA molecules. Science Advances 2019
- Marchetti, M. et al. Real-Time Assembly of Viruslike Nucleocapsids Elucidated at the Single-Particle Level. Nano Letters 2019
- Wasserman, M. et al. Replication Fork Activation Is Enabled by a Single-Stranded DNA Gate in CMG Helicase. Cell 2019
- Zheng, Q. et al. Reversible histone glycation is associated with disease-related changes in chromatin architecture. Nature Communications 2019
- Newton, M. et al. DNA stretching induces Cas9 off-target activity. Nature Structural & Molecular Biology 2019
- Zimmer, M. M. et al. The short isoform of the host antiviral protein ZAP acts as an inhibitor of SARS-CoV-2 programmed ribosomal frameshifting. Nature Communications 2021
- Wruck, F. et al. The ribosome modulates folding inside the ribosomal exit tunnel. Communications Biology 2021
- Maciuba, K. et al. Facile tethering of stable and unstable proteins for optical tweezers experiments. Biophysical Journal 2021
- Avellaneda, M. et al.Simultaneous sensing and imaging of individual biomolecular complexes enabled by modular DNA–protein coupling. Communications Chemistry 2020
- Avellaneda, M. et al.Processive extrusion of polypeptide loops by a Hsp100 disaggregase. Nature 2020
- Kosinski R. et al. Sites of high local frustration in DNA origami. Nature Communications 2019
- Schepers, A. V. et al. Multiscale mechanics and temporal evolution of vimentin intermediate filament networks. PNAS 2021
- Kučera, O. et al. Anillin propels myosin-independent constriction of actin rings. Nature Communications 2021
- Schaedel, L. et al. Vimentin Intermediate Filaments Stabilize Dynamic Microtubules by Direct Interactions. Nature Communications 2021
- Lam, A. J. et al. A Highly Conserved 310-Helix Within the Kinesin Motor Domain is Critical for Kinesin Function and Human Health. Science Advances 2021
- Budaitis, B. G. et al. Pathogenic Mutations in the Kinesin-3 Motor KIF1A Diminish Force Generation and Movement Through Allosteric Mechanisms. Journal of Cell Biology 2021
- Kraxner, J. et al. Post-Translational Modifications Soften Vimentin Intermediate Filaments. Nanoscale 2020
- Mei, L. et al. Molecular mechanism for direct actin force-sensing by α-catenin. eLife 2020
- Schepers, A. et al. Tuning intermediate filament mechanics by indirect and direct charge variations. Nanoscale 2020
- Lorenz, C. et al.Lateral Subunit Coupling Determines Intermediate Filament Mechanics. Physical Review Letters 2019
- Forsting, J. et al.Vimentin Intermediate Filaments Undergo Irreversible Conformational Changes during Cyclic Loading. Nano Letters 2019
- Block, J.et al. Viscoelastic properties of vimentin originate from nonequilibrium conformational changes. Science Advances 2018
- Block, J. et al. Nonlinear Loading-Rate-Dependent Force Response of Individual Vimentin Intermediate Filaments to Applied Strain. Physical Review Letters 2017
- Alshareedah, I. et al. Quantifying Viscosity and Surface Tension of Multi-Component Protein-Nucleic Acid Condensates. Biophysical Journal 2021
- Alshareedah, I. et al. Programmable viscoelasticity in protein-RNA condensates with disordered sticker-spacer polypeptides. Nature Communications 2021
- Ghosh, A. et al. Shear relaxation governs fusion dynamics of biomolecular condensates. Nature Communications, 2021
- Davis, R. B. et al. FUS Oncofusion Protein Condensates Recruit mSWI/SNF Chromatin Remodeler via Heterotypic Interactions Between Prion-like Domains. Protein Science 2021
- Rhine, K. et al. Single-molecule and ensemble methods to probe RNP nucleation and condensate properties. Methods 2021
- Kaur, T. et al. Sequence-encoded and Composition-dependent Protein-RNA Interactions Control Multiphasic Condensate Morphologies. Nature Communications 2021
- Jawerth, L. et al. Protein condensates as aging Maxwell fluids. Science 2020
- Ghosh, A. and Zhou, H.-X. Determinants for Fusion Speed of Biomolecular Droplets. The Journal of Physical Chemistry B, 2020
- Alshareedah, I. et al. Phase transition of RNA−protein complexes into ordered hollow condensates. PNAS 2020
- Alshareedah, I. et al. Interplay between Short-Range Attraction and Long-Range Repulsion Controls Reentrant Liquid Condensation of Ribonucleoprotein–RNA Complexes. Journal of the American Chemical Society 2019
- Gui, X., et al. Structural basis for reversible amyloids of hnRNPA1 elucidates their role in stress granule assembly. Nature Communications 2019
- Kaur, T. et al. Molecular Crowding Tunes Material States of Ribonucleoprotein Condensates. Biomolecules 2019
- Jawerth, L. et al. Salt-Dependent Rheology and Surface Tension of Protein Condensates Using Optical Traps. Physical Review Letters 2018
- Evers, T. M. J. et al. Single-cell analysis reveals chemokine-mediated differential regulation of monocyte mechanics. iScience, 2022
- Freitag, M. et al. Identification and correction of miscalibration artifacts based on force noise for optical tweezers experiments. J. Phys. Chem. 2021
- Dai, X. et al. Optical tweezers-controlled hotspot for sensitive and reproducible surface-enhanced Raman spectroscopy characterization of native protein structures. Nature Communications 2021
- Vasse, G. F. et al. Single Cell Reactomics: Real‐Time Single‐Cell Activation Kinetics of Optically Trapped Macrophages. Small Methods 2021
- Sorkin, R. et al. Synaptotagmin-1 and Doc2b Exhibit Distinct Membrane-Remodeling Mechanisms. Biophysical Journal 2020
LUMCKS’ resources
Brochures, application notes and keynote webinars
DNA-binding proteins
- Analyze Cas9 binding and cleavage properties in real-time while manipulating DNA structures
- Deciphering the structure-function relationship of RNA: a complete guide
- Optical tweezer measurements of DNA conformational dynamics at the single-molecule level
- Real-time visualization of DNA structural transitions under mechanical stress
- Study essential viral processes through a dynamic single-molecule approach
- Single-molecule visualisation of DNA repair mechanisms and non-homologous end joining
- Single-molecule visualisation of DNA repair mechanisms and non-homologous end joining (Chinese)
- Optical tweezers combined with STED reveals protein dynamics on densely covered DNA
- Optical tweezers combined with fluorescence reveals small molecule‒protein interactions
- Study essential viral processes through a dynamic single-molecule approach
Cytoskeleton Structure and Function
Protein folding
Phase separation
Mechanobiology
- Unravelling the mysteries of a molecular chaperone | Dr. Kasia Tych, University of Groningen
- Chaperoning proteins at the single-molecule level |Prof. Sander Tans, AMOLF
- Single-molecule force spectroscopy of protein-membrane interactions |Dr. Lu Ma, CAS IOP
- Nanomechanics of biological systems: from single-proteins to single-cells |Dr. Raul Perez-Jimenez, CIC nanoGUNE
- Correlative force–fluorescence measurements to reveal the dynamic life of single biomolecules |Prof. Johannes Stigler, LMU
- Quantifying binding and movement of proteins along DNA | Dr. Micah McCauley, Northeastern University
- Combining optical tweezers microscopy and surface-enhanced Raman spectroscopy (SERS) to characterize protein structures |Prof. Jinqing Huang, HKUST
- Dynamic Single-Molecule Approach to Visualize the Molecular Mechanisms of DNA-Binding Proteins | Prof. Guillermo Montoya, University of Copenhagen
- One-dimensional diffusion of ParB from parS leads to efficient DNA condensation | Dr. Fernando Moreno-Herrero, CNB – Madrid
